Run ID: ERR5866479
Sample name:
Date: 02-04-2023 00:42:30
Number of reads: 735539
Percentage reads mapped: 99.49
Strain: lineage4.3.3
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
eis | 2715344 | c.-12C>T | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5589 | p.Ser117Tyr | missense_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 8111 | c.810G>T | synonymous_variant | 0.15 |
gyrA | 8944 | p.Gly548Val | missense_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576658 | c.1311G>T | synonymous_variant | 0.12 |
ccsA | 620796 | c.906C>A | synonymous_variant | 0.14 |
rpoC | 762821 | c.-549C>T | upstream_gene_variant | 0.13 |
rpoC | 764817 | p.Val483Ala | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775936 | p.Asp849Tyr | missense_variant | 0.17 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303002 | c.72A>G | synonymous_variant | 0.22 |
fbiC | 1303095 | c.165G>A | synonymous_variant | 1.0 |
fbiC | 1304962 | p.Trp678Gly | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472137 | n.292G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475023 | n.1366G>A | non_coding_transcript_exon_variant | 0.17 |
fabG1 | 1674040 | p.Gly201Trp | missense_variant | 0.12 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918651 | p.Glu238* | stop_gained | 0.12 |
katG | 2154702 | c.1410A>T | synonymous_variant | 0.13 |
katG | 2156196 | c.-85C>T | upstream_gene_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.14 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.15 |
PPE35 | 2170590 | p.Pro8Leu | missense_variant | 0.12 |
Rv1979c | 2221902 | c.1263G>T | synonymous_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
folC | 2746340 | p.Ala420Val | missense_variant | 1.0 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086791 | c.-29T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448793 | p.Lys97Arg | missense_variant | 0.13 |
Rv3083 | 3449109 | c.606C>A | synonymous_variant | 0.13 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474168 | c.162G>A | synonymous_variant | 0.15 |
fprA | 3474588 | c.584_585dupTG | frameshift_variant&stop_gained | 0.11 |
fbiA | 3641255 | p.Ala238Glu | missense_variant | 0.22 |
fbiB | 3642137 | c.603C>A | synonymous_variant | 0.12 |
rpoA | 3877531 | p.Ala326Asp | missense_variant | 0.15 |
ddn | 3987042 | p.Leu67Met | missense_variant | 0.11 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038968 | c.1737G>A | synonymous_variant | 0.9 |
clpC1 | 4040682 | p.Arg8His | missense_variant | 0.15 |
embC | 4240072 | c.210C>A | synonymous_variant | 0.12 |
embC | 4241471 | p.Val537Leu | missense_variant | 0.15 |
embC | 4241677 | c.1815G>T | synonymous_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247132 | p.Asp207Tyr | missense_variant | 0.15 |
embB | 4247555 | p.Leu348Met | missense_variant | 0.12 |
embB | 4248148 | c.1635C>A | synonymous_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |